1c710279ff205260ce4bfe4d263c6edf *DESCRIPTION
95a353249f3d28276dfc6b2623b00e4e *NAMESPACE
8bf1902e426387c5c9a6b0d72bf0736b *NEWS.md
7759bcca51be44149e22bb6aaec9233e *R/clustering_helpers.R
d1790a8361bee9e11f0b1cea1542862c *R/core.R
03fb3665f7c80c13404a55651222c4e6 *R/data.R
7658bab147d68b97882842854e3e6f38 *R/filtering.R
6372fca6a7e13ba832d4e81c9835db26 *R/helpers.R
58f8d983be96e6f225f65974a18411b0 *R/plotting.R
7d43fd3dc1c07f9f47217d7894d6aa20 *R/preprocessing.R
4c18d4c2591f24fadde5047456031a31 *R/protein_selection.R
1a6c41c2dea7d256c0cba9ad0a3c26be *R/spqrp-package.R
dd99223bb7f2dfe21e17b7d79b7e590a *R/utils.R
1f99ff8a51a6d2469824c4c2111cddbf *README.md
c33c4169c48fe6d611ca71069b00d78e *build/vignette.rds
1e01d19cbcb6306390da6710a84dfa04 *data/cohort_a_ranking.rda
98765ba224dd32c6e13851743ccb86ae *inst/CITATION
36aaddf96c82861b6933f38d6dadb13b *inst/doc/spqrp-mock-data.R
edcb2e947b70c61750673c72833a19fd *inst/doc/spqrp-mock-data.Rmd
eecffd89423458ae13194e3fd4978ea6 *inst/doc/spqrp-mock-data.html
8b511e78c301175fec4c531a18e93ee9 *inst/extdata/example_input_cohort_df.csv
c0e83ce40825021cddb35217c15324e4 *inst/extdata/example_protein_ranking.csv
35e8912eb6ac3cc3b83757f2caff066d *man/by_isolation_forest.Rd
0f4cac1856b111288e1bc3e7761597ec *man/by_isolation_forest_plot.Rd
7b7e4943464312a68bd38f236edde8c8 *man/calculate_pairwise_distances.Rd
94d96cf6c162ee6dcd810b6e3996d7fa *man/check_input_data_format.Rd
5fd693dea14a6e3b912b72f35ed2c3cd *man/cluster_samples_iteratively.Rd
2da478b0652d61c9e246e73bcd1a68e8 *man/cohort_a_ranking.Rd
fe4bf5bee90c5ce241031551499b5582 *man/filter_by_occurrence.Rd
a2195aff17b8db2069f78eb3027fe69e *man/get_distances.Rd
aac8ac4b6bb0cbe101be246a9aed9909 *man/get_evaluation_metrics.Rd
873fe2438acd3b52a80bea6e9492e546 *man/get_nearest_neighbours.Rd
0b118bc6dac5dd408de0ec78c3ec2677 *man/get_sample_relations_by_cutoff.Rd
8c36c572f0e0094e4117b3e5c9f5fe4f *man/get_threshold.Rd
e55b8e7078df4a7e93e651f6467b6a16 *man/log_transform.Rd
ea1d9d5bb2d4f7709961211e258cd284 *man/long_to_wide.Rd
1c1c6561b45ba1ab03011bd6c500dcc0 *man/normalize_medianintensity.Rd
1abbd71a9a67268c132a5611f822ae76 *man/optimize_parameters.Rd
3a2cf60594d1e5f5957db23d184d2440 *man/percentile_cutoff.Rd
641becc2189b1b6cd8d4f13fafac82d8 *man/perform_distance_evaluation_on_ranked_proteins.Rd
50410f4befe4ff2ebee769531b5d6671 *man/plate_correct_residuals_by_protein.Rd
f388c6e7d3c68d7e22676e7fd49ebcca *man/plot_distances_neighbours_with_coloring_hue.Rd
762faf59b791a30e7601de75f954504d *man/plot_distribution_of_pairwise_dist.Rd
b608799a9580d76fb18b1e42e7a683bf *man/plot_distribution_with_highlights.Rd
73378d3d1e0a0985ed49e6a716288ec6 *man/print.spqrp_train.Rd
85caf474d4473b57df0a8a1029f691a5 *man/remove_outlier_samples.Rd
9ff978d7f8f3e8a4ef851ffd5654f0ca *man/retrieve_ranking.Rd
b79f18f09743bea0cf10a6f19b4948c9 *man/revert_log_transform.Rd
32788584b5db1588c12b5decbd9e0f50 *man/run_clustering.Rd
af291feca24132dd8a63ba5d7b8ecb16 *man/spqrp-package.Rd
7a59fb9955fc4be1f4f34bc8e933ee95 *man/spqrp_example_data.Rd
18f83893b54cb098980772ee9a2bed9f *man/spqrp_example_path.Rd
0285d9e7e3c5f7f49596fc5208b37378 *man/train_pairwise_balanced_rand_forest.Rd
419a382aa605624e42cf852b2969ada2 *man/train_with_normalise.Rd
bc0b21fd14d7f2d4c0b4189660ee9510 *tests/testthat.R
10225ea35ed3901842a132d6ad18cfd3 *tests/testthat/setup.R
dc23010627b2c1ee0ec1bed1b384b771 *tests/testthat/test-clustering.R
2a94aea67db2503603c2733e083aea6f *tests/testthat/test-distances.R
6d46eae6e07a7a4811e5be57b9502506 *tests/testthat/test-filtering.R
ed59dd3cdcd449c46bf52bcb5309fbc8 *tests/testthat/test-helpers.R
de10e9356a15b1f6f4d2e6ac5498e8fc *tests/testthat/test-input-validation.R
9661bf60d14319a7ff1bbc4020c1deea *tests/testthat/test-preprocessing.R
20063d6ad618568645306fda46d9a34b *tests/testthat/test-protein-selection.R
0b8a49aefe2d8af84e1fbc7dbf632e1e *tests/testthat/test-verbosity.R
edcb2e947b70c61750673c72833a19fd *vignettes/spqrp-mock-data.Rmd
